run_metadata: 67036
This data as json
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| 67036 | SRR17001172 | SRX13191392 | SRS11119484 | SRP347216 | PRJNA782554 | Transcriptome profiling of environmental relevant low concentrations 0.4 ng/L of nano Palladium in Danio rerio | PRJNA782554 | Other | The effects of nano palladium 0.4 ng per L in zebrafish Danio rerio was determined using transcriptome sequencing. The purity of mRNA from the control and nano Pd exposed fishes were checked and the processed reads were mapped with the reference genome of Danio rerio. Around 64792 genes were expressed in Treatment II respectively with respect to the total reads. There were 3153 differentially expressed genes in Control vs Treatment II with 2900 up regulated and 253 down regulated genes. Also for Treatment I vs Treatment II 3347 genes were significantly differentially expressed with 2101 up regulated and 1246 down regulated genes. The up regulation and down regulation of the genes were evident that the nano Pd can affect the physiological and endocrine functions of zebrafish. | BUANNPd0.4ng | strain:AB strain Wild Type|age:6 mpf|dev stage:Adult|sex:male|tissue:Whole Fish Tissue|collection date:2021 03 06|store cond:Liquid Nitrogen|treatment:0.4 ng/L nano Palladium|BioSampleModel:Model organism or animal | 0.4 ng/L nano Pd exposed Zebrafish | nano Pd0.4ng | nano Pd0.4ng | Palladium nanoparticles Pd NPs have been the reliable substitutes as conventional catalysts for its high efficiency and conversion of CO hydrocarbons and NO into less harmful CO2 water and nitrogen. Due to surface abrasion of converters Pd as ultrafine/nanoparticles are liberated into the environment causing possible health effects. Also Pd leaches to the aquatic system through heavy precipitation and runoff. Here we aimed to profile the transcriptome of Danio rerio exposed to nano palladium at xxx.4 ng/L environmental concentration. 500 ng of total RNA of 0.4 ng/L nano Pd fish was isolated and the enriched mRNAs were reverse transcribed to form cDNA. The concentrations above 2 ng/L were used for the transcriptome analysis with the reference genome. Around 64792 genes were expressed in 0.4 ng/L. There were 3153 DEGs in Control vs 0.4 ng/L with 2900 up regulated and 253 down regulated genes. Also for 22 ng/L vs 0.4 ng/L 3347 genes were significantly expressed with 2101 up regulated and 1246 down regulated genes. The transcriptome screening is evident that nano Pd can cause possible effects in organisms even at low concentrations. | RNA-Seq | TRANSCRIPTOMIC | RT-PCR | PAIRED | ILLUMINA | Illumina HiSeq 1000 | SRP347216 | Treated2_R1.fastq Treated2_R2.fastq | fastq fastq | 4185717300.0 | 13952391.0 | Treated2 R1.fastq | 0:150 1:150 | A:1131532349;C:966052110;G:976209681;T:1111787487;N:135673 | 150 | 150 | 1131532349 | 966052110 | 976209681 | 1111787487 | 135673 | SRX13191392 | SRS11119484 | SRA1332836 | ANILA P ASHOKAN|BHARATHIAR UNIVERSITY ZOOLOGY DEPARTEMNT | ANILA P ASHOKAN | 2 | 0.90097 | 0.90521 | 0.05086 | 0.0512 | 0.71969 | 0.72403 | 0.45845 | 0.45942 | 150 | 150 | B | B | biological fallback assumption | illumina | hiseq_era | unknown | other | unknown | bulk | unknown | unknown | Unknown | 2021-11-22 | Adult | Adult | Whole Organism | All anatomical structures |